data_5JL9 # _model_server_result.job_id 8bDLmm7RsPmN7thvp3Wz5w _model_server_result.datetime_utc '2024-11-22 22:50:06' _model_server_result.server_version 0.9.12 _model_server_result.query_name ligand _model_server_result.source_id pdb-bcif _model_server_result.entry_id 5jl9 # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"B","auth_seq_id":600}' # _entry.id 5JL9 # _exptl.entry_id 5JL9 _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 616.487 _entity.id 2 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description 'PROTOPORPHYRIN IX CONTAINING FE' _entity.pdbx_number_of_molecules 1 _entity.pdbx_parent_entity_id . _entity.pdbx_mutation ? _entity.pdbx_fragment ? _entity.pdbx_ec ? # _cell.angle_alpha 90 _cell.angle_beta 90 _cell.angle_gamma 120 _cell.entry_id 5JL9 _cell.length_a 140.016 _cell.length_b 140.016 _cell.length_c 119.379 _cell.Z_PDB 6 _cell.pdbx_unique_axis ? # _symmetry.entry_id 5JL9 _symmetry.cell_setting ? _symmetry.Int_Tables_number 154 _symmetry.space_group_name_Hall ? _symmetry.space_group_name_H-M 'P 32 2 1' # _pdbx_struct_assembly.method_details PISA _pdbx_struct_assembly.oligomeric_details monomeric _pdbx_struct_assembly.oligomeric_count 1 _pdbx_struct_assembly.details author_and_software_defined_assembly _pdbx_struct_assembly.id 1 # _pdbx_struct_assembly_gen.asym_id_list A,B,C,D _pdbx_struct_assembly_gen.assembly_id 1 _pdbx_struct_assembly_gen.oper_expression 1 # _pdbx_struct_oper_list.id 1 _pdbx_struct_oper_list.type 'identity operation' _pdbx_struct_oper_list.name 1_555 _pdbx_struct_oper_list.symmetry_operation x,y,z _pdbx_struct_oper_list.matrix[1][1] 1 _pdbx_struct_oper_list.matrix[1][2] 0 _pdbx_struct_oper_list.matrix[1][3] 0 _pdbx_struct_oper_list.matrix[2][1] 0 _pdbx_struct_oper_list.matrix[2][2] 1 _pdbx_struct_oper_list.matrix[2][3] 0 _pdbx_struct_oper_list.matrix[3][1] 0 _pdbx_struct_oper_list.matrix[3][2] 0 _pdbx_struct_oper_list.matrix[3][3] 1 _pdbx_struct_oper_list.vector[1] 0 _pdbx_struct_oper_list.vector[2] 0 _pdbx_struct_oper_list.vector[3] 0 # _struct_asym.details ? _struct_asym.entity_id 2 _struct_asym.id B _struct_asym.pdbx_modified N _struct_asym.pdbx_blank_PDB_chainid_flag N # _struct_conn.conn_type_id metalc _struct_conn.details ? _struct_conn.id metalc1 _struct_conn.ptnr1_label_asym_id A _struct_conn.ptnr1_label_atom_id SG _struct_conn.ptnr1_label_comp_id CYS _struct_conn.ptnr1_label_seq_id 437 _struct_conn.ptnr1_auth_asym_id A _struct_conn.ptnr1_auth_comp_id CYS _struct_conn.ptnr1_auth_seq_id 437 _struct_conn.ptnr1_symmetry 1_555 _struct_conn.ptnr2_label_asym_id B _struct_conn.ptnr2_label_atom_id FE _struct_conn.ptnr2_label_comp_id HEM _struct_conn.ptnr2_label_seq_id . _struct_conn.ptnr2_auth_asym_id A _struct_conn.ptnr2_auth_comp_id HEM _struct_conn.ptnr2_auth_seq_id 600 _struct_conn.ptnr2_symmetry 1_555 _struct_conn.pdbx_ptnr1_PDB_ins_code ? _struct_conn.pdbx_ptnr1_label_alt_id ? _struct_conn.pdbx_ptnr1_standard_comp_id ? _struct_conn.pdbx_ptnr2_PDB_ins_code ? _struct_conn.pdbx_ptnr2_label_alt_id ? _struct_conn.pdbx_ptnr3_PDB_ins_code ? _struct_conn.pdbx_ptnr3_label_alt_id ? _struct_conn.pdbx_ptnr3_label_asym_id ? _struct_conn.pdbx_ptnr3_label_atom_id ? _struct_conn.pdbx_ptnr3_label_comp_id ? _struct_conn.pdbx_ptnr3_label_seq_id ? _struct_conn.pdbx_PDB_id ? _struct_conn.pdbx_dist_value 2.407 _struct_conn.pdbx_value_order ? # _chem_comp.formula 'C34 H32 Fe N4 O4' _chem_comp.formula_weight 616.487 _chem_comp.id HEM _chem_comp.mon_nstd_flag . _chem_comp.name 'PROTOPORPHYRIN IX CONTAINING FE' _chem_comp.type non-polymer _chem_comp.pdbx_synonyms HEME # loop_ _chem_comp_bond.atom_id_1 _chem_comp_bond.atom_id_2 _chem_comp_bond.comp_id _chem_comp_bond.value_order _chem_comp_bond.pdbx_ordinal _chem_comp_bond.pdbx_stereo_config _chem_comp_bond.pdbx_aromatic_flag CHA C1A HEM sing 179 n n CHA C4D HEM doub 180 n n CHA HHA HEM sing 181 n n CHB C4A HEM sing 182 n n CHB C1B HEM doub 183 n n CHB HHB HEM sing 184 n n CHC C4B HEM sing 185 n n CHC C1C HEM doub 186 n n CHC HHC HEM sing 187 n n CHD C4C HEM doub 188 n n CHD C1D HEM sing 189 n n CHD HHD HEM sing 190 n n C1A C2A HEM doub 191 n y C1A NA HEM sing 192 n y C2A C3A HEM sing 193 n y C2A CAA HEM sing 194 n n C3A C4A HEM doub 195 n y C3A CMA HEM sing 196 n n C4A NA HEM sing 197 n y CMA HMA HEM sing 198 n n CMA HMAA HEM sing 199 n n CMA HMAB HEM sing 200 n n CAA CBA HEM sing 201 n n CAA HAA HEM sing 202 n n CAA HAAA HEM sing 203 n n CBA CGA HEM sing 204 n n CBA HBA HEM sing 205 n n CBA HBAA HEM sing 206 n n CGA O1A HEM doub 207 n n CGA O2A HEM sing 208 n n C1B C2B HEM sing 209 n n C1B NB HEM sing 210 n n C2B C3B HEM doub 211 n n C2B CMB HEM sing 212 n n C3B C4B HEM sing 213 n n C3B CAB HEM sing 214 n n C4B NB HEM doub 215 n n CMB HMB HEM sing 216 n n CMB HMBA HEM sing 217 n n CMB HMBB HEM sing 218 n n CAB CBB HEM doub 219 n n CAB HAB HEM sing 220 n n CBB HBB HEM sing 221 n n CBB HBBA HEM sing 222 n n C1C C2C HEM sing 223 n y C1C NC HEM sing 224 n y C2C C3C HEM doub 225 n y C2C CMC HEM sing 226 n n C3C C4C HEM sing 227 n y C3C CAC HEM sing 228 n n C4C NC HEM sing 229 n y CMC HMC HEM sing 230 n n CMC HMCA HEM sing 231 n n CMC HMCB HEM sing 232 n n CAC CBC HEM doub 233 n n CAC HAC HEM sing 234 n n CBC HBC HEM sing 235 n n CBC HBCA HEM sing 236 n n C1D C2D HEM sing 237 n n C1D ND HEM doub 238 n n C2D C3D HEM doub 239 n n C2D CMD HEM sing 240 n n C3D C4D HEM sing 241 n n C3D CAD HEM sing 242 n n C4D ND HEM sing 243 n n CMD HMD HEM sing 244 n n CMD HMDA HEM sing 245 n n CMD HMDB HEM sing 246 n n CAD CBD HEM sing 247 n n CAD HAD HEM sing 248 n n CAD HADA HEM sing 249 n n CBD CGD HEM sing 250 n n CBD HBD HEM sing 251 n n CBD HBDA HEM sing 252 n n CGD O1D HEM doub 253 n n CGD O2D HEM sing 254 n n O2A H2A HEM sing 255 n n O2D H2D HEM sing 256 n n FE NA HEM sing 257 n n FE NB HEM sing 258 n n FE NC HEM sing 259 n n FE ND HEM sing 260 n n # _atom_sites.entry_id 5JL9 _atom_sites.fract_transf_matrix[1][1] 0.007142 _atom_sites.fract_transf_matrix[1][2] 0.004123 _atom_sites.fract_transf_matrix[1][3] 0 _atom_sites.fract_transf_matrix[2][1] 0 _atom_sites.fract_transf_matrix[2][2] 0.008247 _atom_sites.fract_transf_matrix[2][3] 0 _atom_sites.fract_transf_matrix[3][1] 0 _atom_sites.fract_transf_matrix[3][2] 0 _atom_sites.fract_transf_matrix[3][3] 0.008377 _atom_sites.fract_transf_vector[1] 0 _atom_sites.fract_transf_vector[2] 0 _atom_sites.fract_transf_vector[3] 0 # loop_ _pdbx_nonpoly_scheme.asym_id _pdbx_nonpoly_scheme.entity_id _pdbx_nonpoly_scheme.mon_id _pdbx_nonpoly_scheme.pdb_strand_id _pdbx_nonpoly_scheme.ndb_seq_num _pdbx_nonpoly_scheme.pdb_seq_num _pdbx_nonpoly_scheme.auth_seq_num _pdbx_nonpoly_scheme.pdb_mon_id _pdbx_nonpoly_scheme.auth_mon_id _pdbx_nonpoly_scheme.pdb_ins_code B 2 HEM A 1 600 600 HEM HEM . C 3 ASD A 1 601 601 ASD ASD . D 4 HOH A 1 701 4 HOH HOH . D 4 HOH A 2 702 3 HOH HOH . D 4 HOH A 3 703 2 HOH HOH . D 4 HOH A 4 704 7 HOH HOH . D 4 HOH A 5 705 1 HOH HOH . D 4 HOH A 6 706 6 HOH HOH . D 4 HOH A 7 707 5 HOH HOH . # loop_ _atom_site.group_PDB _atom_site.id _atom_site.type_symbol _atom_site.label_atom_id _atom_site.label_comp_id _atom_site.label_seq_id _atom_site.label_alt_id _atom_site.pdbx_PDB_ins_code _atom_site.label_asym_id _atom_site.label_entity_id _atom_site.Cartn_x _atom_site.Cartn_y _atom_site.Cartn_z _atom_site.occupancy _atom_site.B_iso_or_equiv _atom_site.pdbx_formal_charge _atom_site.auth_atom_id _atom_site.auth_comp_id _atom_site.auth_seq_id _atom_site.auth_asym_id _atom_site.pdbx_PDB_model_num HETATM 1 C CHA HEM . . . B 2 86.228 52.535 41.348 1 65.5 ? CHA HEM 600 A 1 HETATM 2 C CHB HEM . . . B 2 81.745 51.141 42.345 1 67.75 ? CHB HEM 600 A 1 HETATM 3 C CHC HEM . . . B 2 83.389 46.772 43.566 1 72.68 ? CHC HEM 600 A 1 HETATM 4 C CHD HEM . . . B 2 87.797 48.092 42.333 1 67.08 ? CHD HEM 600 A 1 HETATM 5 C C1A HEM . . . B 2 84.872 52.503 41.493 1 67.05 ? C1A HEM 600 A 1 HETATM 6 C C2A HEM . . . B 2 84.027 53.592 41.204 1 71.23 ? C2A HEM 600 A 1 HETATM 7 C C3A HEM . . . B 2 82.761 53.206 41.474 1 71.19 ? C3A HEM 600 A 1 HETATM 8 C C4A HEM . . . B 2 82.819 51.876 41.934 1 66.72 ? C4A HEM 600 A 1 HETATM 9 C CMA HEM . . . B 2 81.546 54.092 41.298 1 73.06 ? CMA HEM 600 A 1 HETATM 10 C CAA HEM . . . B 2 84.421 54.947 40.663 1 72.59 ? CAA HEM 600 A 1 HETATM 11 C CBA HEM . . . B 2 84.602 54.785 39.153 1 76.83 ? CBA HEM 600 A 1 HETATM 12 C CGA HEM . . . B 2 84.602 56.112 38.44 1 79.64 ? CGA HEM 600 A 1 HETATM 13 O O1A HEM . . . B 2 85.317 57.054 38.84 1 86.67 ? O1A HEM 600 A 1 HETATM 14 O O2A HEM . . . B 2 83.897 56.273 37.423 1 78.49 ? O2A HEM 600 A 1 HETATM 15 C C1B HEM . . . B 2 81.813 49.823 42.809 1 70.45 ? C1B HEM 600 A 1 HETATM 16 C C2B HEM . . . B 2 80.681 49.094 43.27 1 73.62 ? C2B HEM 600 A 1 HETATM 17 C C3B HEM . . . B 2 81.108 47.841 43.614 1 75 ? C3B HEM 600 A 1 HETATM 18 C C4B HEM . . . B 2 82.569 47.868 43.354 1 71.12 ? C4B HEM 600 A 1 HETATM 19 C CMB HEM . . . B 2 79.278 49.636 43.317 1 79.51 ? CMB HEM 600 A 1 HETATM 20 C CAB HEM . . . B 2 80.388 46.659 44.17 1 79.2 ? CAB HEM 600 A 1 HETATM 21 C CBB HEM . . . B 2 79.115 46.599 44.543 1 82.9 ? CBB HEM 600 A 1 HETATM 22 C C1C HEM . . . B 2 84.74 46.709 43.296 1 74.95 ? C1C HEM 600 A 1 HETATM 23 C C2C HEM . . . B 2 85.563 45.57 43.43 1 79 ? C2C HEM 600 A 1 HETATM 24 C C3C HEM . . . B 2 86.86 45.956 43.07 1 76.04 ? C3C HEM 600 A 1 HETATM 25 C C4C HEM . . . B 2 86.762 47.329 42.72 1 69.5 ? C4C HEM 600 A 1 HETATM 26 C CMC HEM . . . B 2 85.093 44.199 43.882 1 76.74 ? CMC HEM 600 A 1 HETATM 27 C CAC HEM . . . B 2 88.118 45.16 43.011 1 78.18 ? CAC HEM 600 A 1 HETATM 28 C CBC HEM . . . B 2 88.232 43.857 43.274 1 82.08 ? CBC HEM 600 A 1 HETATM 29 C C1D HEM . . . B 2 87.667 49.425 42.003 1 67.5 ? C1D HEM 600 A 1 HETATM 30 C C2D HEM . . . B 2 88.856 50.191 41.642 1 67.21 ? C2D HEM 600 A 1 HETATM 31 C C3D HEM . . . B 2 88.434 51.423 41.355 1 65.64 ? C3D HEM 600 A 1 HETATM 32 C C4D HEM . . . B 2 86.987 51.411 41.568 1 67.07 ? C4D HEM 600 A 1 HETATM 33 C CMD HEM . . . B 2 90.272 49.674 41.594 1 68.98 ? CMD HEM 600 A 1 HETATM 34 C CAD HEM . . . B 2 89.293 52.583 40.961 1 66.08 ? CAD HEM 600 A 1 HETATM 35 C CBD HEM . . . B 2 89.435 52.691 39.46 1 69.81 ? CBD HEM 600 A 1 HETATM 36 C CGD HEM . . . B 2 90.367 53.835 39.155 1 71.99 ? CGD HEM 600 A 1 HETATM 37 O O1D HEM . . . B 2 91.153 53.754 38.184 1 70.09 ? O1D HEM 600 A 1 HETATM 38 O O2D HEM . . . B 2 90.341 54.871 39.868 1 74.27 ? O2D HEM 600 A 1 HETATM 39 N NA HEM . . . B 2 84.108 51.455 41.936 1 65.36 ? NA HEM 600 A 1 HETATM 40 N NB HEM . . . B 2 82.883 49.053 42.858 1 67.18 ? NB HEM 600 A 1 HETATM 41 N NC HEM . . . B 2 85.48 47.75 42.863 1 70.74 ? NC HEM 600 A 1 HETATM 42 N ND HEM . . . B 2 86.563 50.182 41.927 1 70.36 ? ND HEM 600 A 1 HETATM 43 FE FE HEM . . . B 2 84.803 49.653 42.361 1 69.81 ? FE HEM 600 A 1 # _model_server_stats.io_time_ms 14 _model_server_stats.parse_time_ms 9 _model_server_stats.create_model_time_ms 17 _model_server_stats.query_time_ms 263 _model_server_stats.encode_time_ms 2 _model_server_stats.element_count 43 #